Atlas of Genetics and Cytogenetics in Oncology and Haematology


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Taking over the Atlas
Dear Colleagues,
The Atlas, once more, is in great danger, and I will have to proceed to a collective economic lay-off of all the team involved in the Atlas before the begining of April 2015 (a foundation having suddenly withdrawn its commitment to support the Atlas). I ask you herein if any Scientific Society (a Society of Cytogenetics, of Clinical Genetics, of Hematology, or a Cancer Society, or any other...), any University and/or Hospital, any Charity, or any database would be interested in taking over the Atlas, in whole or in part. If taking charge of the whole lot is too big, a consortium of various actors could be the solution (I am myself trying to find partners). Could you please spread the information, contact the relevant authorities, and find partners.
Survival of the Atlas will be critically dependant upon your ability to find solutions (and urgently!).
Kind regards.
Jean-Loup Huret jlhuret@AtlasGeneticsOncology.org
Donations are also welcome
If each casual visitor gives 3 Euros or Dollars, the Atlas is saved in a week !
If each professional gives 100 Euros or Dollars once a year (now), the Atlas is saved in 2 weeks !
Don't let the Atlas imminent demise
Note: we send fiscal receipts for donations equal or above 50 Euros or Dollars

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DICER1 (dicer 1, ribonuclease type III)

Identity

Other namesDCR1
Dicer
Dicer1e
HERNA
K12H4.8-LIKE
MNG1
RMSE2
HGNC (Hugo) DICER1
LocusID (NCBI) 23405
Location 14q32.13
Location_base_pair Starts at 95552565 and ends at 95599840 bp from pter ( according to hg19-Feb_2009)
Note

Non-annotated gene. Preliminary data : if you are an author
who wish to write a full paper/card on this gene, go to  How to contribute

DNA/RNA

 

External links

Nomenclature
HGNC (Hugo)DICER1   17098
Cards
Entrez_Gene (NCBI)DICER1  23405  dicer 1, ribonuclease type III
GeneCards (Weizmann)DICER1
Ensembl hg19 (Hinxton)ENSG00000100697 [Gene_View]  chr14:95552565-95599840 [Contig_View]  DICER1 [Vega]
Ensembl hg38 (Hinxton)ENSG00000100697 [Gene_View]  chr14:95552565-95599840 [Contig_View]  DICER1 [Vega]
ICGC DataPortalENSG00000100697
cBioPortalDICER1
AceView (NCBI)DICER1
Genatlas (Paris)DICER1
WikiGenes23405
SOURCE (Princeton)DICER1
Genomic and cartography
GoldenPath hg19 (UCSC)DICER1  -     chr14:95552565-95599840 -  14q32.13   [Description]    (hg19-Feb_2009)
GoldenPath hg38 (UCSC)DICER1  -     14q32.13   [Description]    (hg38-Dec_2013)
EnsemblDICER1 - 14q32.13 [CytoView hg19]  DICER1 - 14q32.13 [CytoView hg38]
Mapping of homologs : NCBIDICER1 [Mapview hg19]  DICER1 [Mapview hg38]
OMIM138800   180295   601200   606241   
Gene and transcription
Genbank (Entrez)AB023145 AB028449 AF007142 AJ132261 AK001041
RefSeq transcript (Entrez)NM_001195573 NM_001271282 NM_001291628 NM_030621 NM_177438
RefSeq genomic (Entrez)NC_000014 NC_018925 NG_016311 NT_026437 NW_004929393
Consensus coding sequences : CCDS (NCBI)DICER1
Cluster EST : UnigeneHs.738957 [ NCBI ]
CGAP (NCI)Hs.738957
Alternative Splicing : Fast-db (Paris)GSHG0009596
Alternative Splicing GalleryENSG00000100697
Gene ExpressionDICER1 [ NCBI-GEO ]     DICER1 [ SEEK ]   DICER1 [ MEM ]
SOURCE (Princeton)Expression in : [Normal Tissue Atlas]  [carcinoma Classsification]  [NCI60]
Protein : pattern, domain, 3D structure
UniProt/SwissProtQ9UPY3 (Uniprot)
NextProtQ9UPY3  [Medical]
With graphics : InterProQ9UPY3
Splice isoforms : SwissVarQ9UPY3 (Swissvar)
Catalytic activity : Enzyme3.1.26.3 [ Enzyme-Expasy ]   3.1.26.33.1.26.3 [ IntEnz-EBI ]   3.1.26.3 [ BRENDA ]   3.1.26.3 [ KEGG ]   
Domaine pattern : Prosite (Expaxy)DICER_DSRBF (PS51327)    DS_RBD (PS50137)    HELICASE_ATP_BIND_1 (PS51192)    HELICASE_CTER (PS51194)    PAZ (PS50821)    RNASE_3_1 (PS00517)    RNASE_3_2 (PS50142)   
Domains : Interpro (EBI)DEAD/DEAH_box_helicase_dom    Dicer_dimerisation_dom    dsRNA-bd_dom    Helicase_ATP-bd    Helicase_C    P-loop_NTPase    PAZ_dom    RNase_III_dom   
Related proteins : CluSTrQ9UPY3
Domain families : Pfam (Sanger)DEAD (PF00270)    Dicer_dimer (PF03368)    Helicase_C (PF00271)    PAZ (PF02170)    Ribonuclease_3 (PF00636)   
Domain families : Pfam (NCBI)pfam00270    pfam03368    pfam00271    pfam02170    pfam00636   
Domain families : Smart (EMBL)DEXDc (SM00487)  DSRM (SM00358)  HELICc (SM00490)  PAZ (SM00949)  RIBOc (SM00535)  
DMDM Disease mutations23405
Blocks (Seattle)Q9UPY3
PDB (SRS)2EB1    4NGB    4NGC    4NGD    4NGF    4NGG    4NH3    4NH5    4NH6    4NHA   
PDB (PDBSum)2EB1    4NGB    4NGC    4NGD    4NGF    4NGG    4NH3    4NH5    4NH6    4NHA   
PDB (IMB)2EB1    4NGB    4NGC    4NGD    4NGF    4NGG    4NH3    4NH5    4NH6    4NHA   
PDB (RSDB)2EB1    4NGB    4NGC    4NGD    4NGF    4NGG    4NH3    4NH5    4NH6    4NHA   
Human Protein AtlasENSG00000100697
Peptide AtlasQ9UPY3
HPRD05875
IPIIPI00219036   IPI01025259   IPI01025417   IPI00977554   IPI00977945   
Protein Interaction databases
DIP (DOE-UCLA)Q9UPY3
IntAct (EBI)Q9UPY3
FunCoupENSG00000100697
BioGRIDDICER1
IntegromeDBDICER1
STRING (EMBL)DICER1
Ontologies - Pathways
QuickGOQ9UPY3
Ontology : AmiGOnegative regulation of transcription from RNA polymerase II promoter  angiogenesis  double-stranded RNA binding  double-stranded RNA binding  helicase activity  endoribonuclease activity  endoribonuclease activity  ribonuclease III activity  deoxyribonuclease I activity  protein binding  ATP binding  nucleus  cytoplasm  endoplasmic reticulum-Golgi intermediate compartment  cytosol  apoptotic DNA fragmentation  post-embryonic development  zygote asymmetric cell division  gene expression  negative regulation of Schwann cell proliferation  positive regulation of gene expression  regulation of muscle cell apoptotic process  positive regulation of Schwann cell differentiation  myoblast differentiation involved in skeletal muscle regeneration  RISC complex  RISC complex  stem cell maintenance  spinal cord motor neuron differentiation  nerve development  olfactory bulb interneuron differentiation  cerebral cortex development  lung development  production of siRNA involved in RNA interference  targeting of mRNA for destruction involved in RNA interference  axon  dendrite  growth cone  pre-miRNA processing  hair follicle morphogenesis  positive regulation of myelination  peripheral nervous system myelin formation  ARC complex  conversion of ds siRNA to ss siRNA involved in RNA interference  micro-ribonucleoprotein complex  embryonic hindlimb morphogenesis  production of miRNAs involved in gene silencing by miRNA  production of miRNAs involved in gene silencing by miRNA  miRNA binding  multicellular organism growth  miRNA loading onto RISC involved in gene silencing by miRNA  conversion of ds siRNA to ss siRNA  regulation of viral genome replication  regulation of neuron differentiation  metal ion binding  mRNA stabilization  spleen development  reproductive structure development  regulation of oligodendrocyte differentiation  branching morphogenesis of an epithelial tube  neuron projection morphogenesis  cartilage development  spindle assembly  defense response to virus  regulation of cell cycle  cardiac muscle cell development  inner ear receptor cell development  intestinal epithelial cell development  cardiac neural crest cell development involved in outflow tract morphogenesis  ganglion development  regulation of enamel mineralization  RISC-loading complex  pre-miRNA binding  pre-miRNA binding  hair follicle cell proliferation  RNA phosphodiester bond hydrolysis, endonucleolytic  positive regulation of miRNA metabolic process  
Ontology : EGO-EBInegative regulation of transcription from RNA polymerase II promoter  angiogenesis  double-stranded RNA binding  double-stranded RNA binding  helicase activity  endoribonuclease activity  endoribonuclease activity  ribonuclease III activity  deoxyribonuclease I activity  protein binding  ATP binding  nucleus  cytoplasm  endoplasmic reticulum-Golgi intermediate compartment  cytosol  apoptotic DNA fragmentation  post-embryonic development  zygote asymmetric cell division  gene expression  negative regulation of Schwann cell proliferation  positive regulation of gene expression  regulation of muscle cell apoptotic process  positive regulation of Schwann cell differentiation  myoblast differentiation involved in skeletal muscle regeneration  RISC complex  RISC complex  stem cell maintenance  spinal cord motor neuron differentiation  nerve development  olfactory bulb interneuron differentiation  cerebral cortex development  lung development  production of siRNA involved in RNA interference  targeting of mRNA for destruction involved in RNA interference  axon  dendrite  growth cone  pre-miRNA processing  hair follicle morphogenesis  positive regulation of myelination  peripheral nervous system myelin formation  ARC complex  conversion of ds siRNA to ss siRNA involved in RNA interference  micro-ribonucleoprotein complex  embryonic hindlimb morphogenesis  production of miRNAs involved in gene silencing by miRNA  production of miRNAs involved in gene silencing by miRNA  miRNA binding  multicellular organism growth  miRNA loading onto RISC involved in gene silencing by miRNA  conversion of ds siRNA to ss siRNA  regulation of viral genome replication  regulation of neuron differentiation  metal ion binding  mRNA stabilization  spleen development  reproductive structure development  regulation of oligodendrocyte differentiation  branching morphogenesis of an epithelial tube  neuron projection morphogenesis  cartilage development  spindle assembly  defense response to virus  regulation of cell cycle  cardiac muscle cell development  inner ear receptor cell development  intestinal epithelial cell development  cardiac neural crest cell development involved in outflow tract morphogenesis  ganglion development  regulation of enamel mineralization  RISC-loading complex  pre-miRNA binding  pre-miRNA binding  hair follicle cell proliferation  RNA phosphodiester bond hydrolysis, endonucleolytic  positive regulation of miRNA metabolic process  
Pathways : BIOCARTADicer Pathway [Genes]   
Pathways : KEGGMicroRNAs in cancer   
Protein Interaction DatabaseDICER1
DoCM (Curated mutations)DICER1
Wikipedia pathwaysDICER1
Gene fusion - rearrangements
Polymorphisms : SNP, variants
NCBI Variation ViewerDICER1 [hg38]
dbSNP Single Nucleotide Polymorphism (NCBI)DICER1
dbVarDICER1
ClinVarDICER1
1000_GenomesDICER1 
Exome Variant ServerDICER1
SNP (GeneSNP Utah)DICER1
SNP : HGBaseDICER1
Genetic variants : HAPMAPDICER1
Genomic Variants (DGV)DICER1 [DGVbeta]
Mutations
ICGC Data PortalENSG00000100697 
Cancer Gene: CensusDICER1 
Somatic Mutations in Cancer : COSMICDICER1 
CONAN: Copy Number AnalysisDICER1 
LOVD (Leiden Open Variation Database)Whole genome datasets
LOVD (Leiden Open Variation Database)LOVD - Leiden Open Variation Database
LOVD (Leiden Open Variation Database)LOVD 3.0 shared installation
LOVD (Leiden Open Variation Database)Mendelian genes
Impact of mutations[PolyPhen2] [SIFT Human Coding SNP] [Buck Institute : MutDB] [Mutation Assessor] 
Diseases
DECIPHER (Syndromes)14:95552565-95599840
Mutations and Diseases : HGMDDICER1
OMIM138800    180295    601200    606241   
MedgenDICER1
NextProtQ9UPY3 [Medical]
GENETestsDICER1
Disease Genetic AssociationDICER1
Huge Navigator DICER1 [HugePedia]  DICER1 [HugeCancerGEM]
snp3D : Map Gene to Disease23405
DGIdb (Drug Gene Interaction db)DICER1
General knowledge
Homologs : HomoloGeneDICER1
Homology/Alignments : Family Browser (UCSC)DICER1
Phylogenetic Trees/Animal Genes : TreeFamDICER1
Chemical/Protein Interactions : CTD23405
Chemical/Pharm GKB GenePA38437
Clinical trialDICER1
Cancer Resource (Charite)ENSG00000100697
Other databases
Probes
Litterature
PubMed260 Pubmed reference(s) in Entrez
CoreMineDICER1
GoPubMedDICER1
iHOPDICER1
Genes in titleautomatic search in PubMed
REVIEW articlesautomatic search in PubMed
Last year publicationsautomatic search in PubMed

Search in all EBI   NCBI

Contributor(s)

Written09-2002Dessen P, Le Minor S
Updated02-2015Dessen P

© Atlas of Genetics and Cytogenetics in Oncology and Haematology
indexed on : Sat Mar 28 15:12:46 CET 2015

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For comments and suggestions or contributions, please contact us

jlhuret@AtlasGeneticsOncology.org.